-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_24/scaffold_24_3154123-3387795

-reading genomic sequence.

** Processing features (+)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: +)
-loading gene prediction evidence. (strand: +)Valid prediction for GlimmerHMM_glimmerT_52259-T1
Couldn't classify 182056, 182156
Sorry, prediction pasa_asmbl_32139.p1 fails validation.
(ATG)	 CC	179708-179747	GT	AGG
(TGG)	 AG	181246-181441	GT	GCG
(GTA)	 AG	181571-181764	GT	AGG
(AGA)	 AG	181884-181964	GT	AGG
(AAA)	 AG	182056-182156	CG	ACC
-recovered pasa_asmbl_32139.p1, initial, 179708, 179747
-recovered pasa_asmbl_32139.p1, internal, 181246, 181441
-recovered pasa_asmbl_32139.p1, internal, 181571, 181764
-recovered pasa_asmbl_32139.p1, internal, 181884, 181964
Valid prediction for Augustus_model.g34804.t1
Valid prediction for HiQ_model.g34811.t1
Valid prediction for GlimmerHMM_glimmerT_52258-T1
Valid prediction for GlimmerHMM_glimmerT_52236-T1
Valid prediction for snap_scaffold_24-snap.733-T1
Valid prediction for snap_scaffold_24-snap.740-T1
Valid prediction for Augustus_model.g34806.t1
Valid prediction for GlimmerHMM_glimmerT_52251-T1
Valid prediction for Augustus_model.g34807.t1
Valid prediction for GlimmerHMM_glimmerT_52249-T1
Valid prediction for snap_scaffold_24-snap.709-T1
Valid prediction for GlimmerHMM_glimmerT_52253-T1
Valid prediction for GlimmerHMM_glimmerT_52245-T1
Valid prediction for snap_scaffold_24-snap.742-T1
Valid prediction for snap_scaffold_24-snap.720-T1
Valid prediction for snap_scaffold_24-snap.739-T1
Valid prediction for GlimmerHMM_glimmerT_52244-T1
Valid prediction for snap_scaffold_24-snap.711-T1
Valid prediction for GlimmerHMM_glimmerT_52263-T1
Valid prediction for snap_scaffold_24-snap.725-T1
Valid prediction for Augustus_model.g34805.t1
Valid prediction for GlimmerHMM_glimmerT_52254-T1
Valid prediction for GlimmerHMM_glimmerT_52246-T1
Valid prediction for snap_scaffold_24-snap.728-T1
Valid prediction for Augustus_model.g34802.t1
Valid prediction for snap_scaffold_24-snap.722-T1
Valid prediction for Augustus_model.g34808.t1
Valid prediction for snap_scaffold_24-snap.721-T1
Valid prediction for GlimmerHMM_glimmerT_52237-T1
Valid prediction for snap_scaffold_24-snap.738-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_24-snap.716-T1
Valid prediction for snap_scaffold_24-snap.732-T1
Valid prediction for GlimmerHMM_glimmerT_52250-T1
Valid prediction for GlimmerHMM_glimmerT_52243-T1
Valid prediction for GlimmerHMM_glimmerT_52252-T1

-loading the search evidence (protein and EST search results, strand: +)
-scoring exons (strand: +)

** Processing features (-)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: -)
-loading gene prediction evidence. (strand: -)Valid prediction for snap_scaffold_24-snap.714-T1
Valid prediction for HiQ_model.g34810.t1
Valid prediction for snap_scaffold_24-snap.715-T1
Valid prediction for GlimmerHMM_glimmerT_52255-T1
Valid prediction for pasa_asmbl_32821.p4
Valid prediction for snap_scaffold_24-snap.737-T1
Valid prediction for CodingQuarry_transcript_37273-T1
Couldn't classify 44373, 44542
Sorry, prediction pasa_asmbl_32819.p1 fails validation.
(ACG)	 CA	44373-44542	GT	AGG
(TGA)	 AG	44999-45203	GT	AGG
(TGG)	 AG	45708-45917	GT	TGG
(GTG)	 AG	46475-46633	GC	GAG
-recovered pasa_asmbl_32819.p1, terminal, 46475, 46633
-recovered pasa_asmbl_32819.p1, internal, 44999, 45203
-recovered pasa_asmbl_32819.p1, internal, 45708, 45917
-recovered pasa_asmbl_32819.p1, internal, 46475, 46633
Valid prediction for snap_scaffold_24-snap.727-T1
Valid prediction for snap_scaffold_24-snap.723-T1
Valid prediction for GlimmerHMM_glimmerT_52240-T1
Valid prediction for snap_scaffold_24-snap.730-T1
Valid prediction for snap_scaffold_24-snap.729-T1
Valid prediction for snap_scaffold_24-snap.726-T1
Valid prediction for snap_scaffold_24-snap.717-T1
Valid prediction for pasa_asmbl_32815.p1
Valid prediction for Augustus_model.g34814.t1
Valid prediction for snap_scaffold_24-snap.719-T1
Valid prediction for GlimmerHMM_glimmerT_52238-T1
Valid prediction for CodingQuarry_transcript_37274-T1
Valid prediction for Augustus_model.g34803.t1
Valid prediction for snap_scaffold_24-snap.713-T1
Valid prediction for CodingQuarry_transcript_37276-T1
Valid prediction for snap_scaffold_24-snap.718-T1
Valid prediction for GlimmerHMM_glimmerT_52247-T1
Valid prediction for snap_scaffold_24-snap.735-T1
Valid prediction for snap_scaffold_24-snap.741-T1
Valid prediction for CodingQuarry_transcript_37275-T1
Valid prediction for GlimmerHMM_glimmerT_52256-T1
Valid prediction for snap_scaffold_24-snap.708-T1
Valid prediction for Augustus_model.g34813.t1
Valid prediction for GlimmerHMM_glimmerT_52242-T1
Valid prediction for GlimmerHMM_glimmerT_52260-T1
Valid prediction for GlimmerHMM_glimmerT_52261-T1
Valid prediction for Augustus_model.g34815.t1
Valid prediction for GlimmerHMM_glimmerT_52239-T1
Valid prediction for GlimmerHMM_glimmerT_52257-T1
Valid prediction for Augustus_model.g34809.t1
Valid prediction for snap_scaffold_24-snap.712-T1
Valid prediction for GlimmerHMM_glimmerT_52264-T1
Valid prediction for snap_scaffold_24-snap.736-T1
Valid prediction for snap_scaffold_24-snap.724-T1
Valid prediction for GlimmerHMM_glimmerT_52262-T1
Valid prediction for GlimmerHMM_glimmerT_52248-T1
Valid prediction for snap_scaffold_24-snap.710-T1
Valid prediction for GlimmerHMM_glimmerT_52241-T1
Valid prediction for HiQ_model.g34812.t1
Valid prediction for snap_scaffold_24-snap.734-T1
Valid prediction for snap_scaffold_24-snap.731-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 33447, rend_intergenic: 11303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37278, rend_intergenic: 36192  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78789, rend_intergenic: 37333  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83592, rend_intergenic: 80526  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109884, rend_intergenic: 85651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139425, rend_intergenic: 109884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145206, rend_intergenic: 139945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157893, rend_intergenic: 145527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160743, rend_intergenic: 158818  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167276, rend_intergenic: 161909  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 220565, rend_intergenic: 203413  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 220692, rend_intergenic: 220627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 232567, rend_intergenic: 220700  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 233673
-exon list size: 411


building trellis

0.2    
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1.0    
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1.9    
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7.3    
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8.7    
9.0    
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9.4    
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10.9    
11.1    
11.4    
11.6    
11.9    
12.1    
12.3    
12.6    
12.8    
13.1    
13.3    
13.6    
13.8    
14.0    
14.3    
14.5    
14.8    
15.0    
15.3    
15.5    
15.7    
16.0    
16.2    
16.5    
16.7    
16.9    
17.2    
17.4    
17.7    
17.9    
18.2    
18.4    
18.6    
18.9    
19.1    
19.4    
19.6    
19.9    
20.1    
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20.6    
20.8    
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21.5    
21.8    
22.0    
22.3    
22.5    
22.8    
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23.2    
23.5    
23.7    
24.0    
24.2    
24.5    
24.7    
24.9    
25.2    
25.4    
25.7    
25.9    
26.2    
26.4    
26.6    
26.9    
27.1    
27.4    
27.6    
27.8    
28.1    
28.3    
28.6    
28.8    
29.1    
29.3    
29.5    
29.8    
30.0    
30.3    
30.5    
30.8    
31.0    
31.2    
31.5    
31.7    
32.0    
32.2    
32.4    
32.7    
32.9    
33.2    
33.4    
33.7    
33.9    
34.1    
34.4    
34.6    
34.9    
35.1    
35.4    
35.6    
35.8    
36.1    
36.3    
36.6    
36.8    
37.0    
37.3    
37.5    
37.8    
38.0    
38.3    
38.5    
38.7    
39.0    
39.2    
39.5    
39.7    
40.0    
40.2    
40.4    
40.7    
40.9    
41.2    
41.4    
41.6    
41.9    
42.1    
42.4    
42.6    
42.9    
43.1    
43.3    
43.6    
43.8    
44.1    
44.3    
44.6    
44.8    
45.0    
45.3    
45.5    
45.8    
46.0    
46.2    
46.5    
46.7    
47.0    
47.2    
47.5    
47.7    
47.9    
48.2    
48.4    
48.7    
48.9    
49.2    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.8    
51.1    
51.3    
51.6    
51.8    
52.1    
52.3    
52.5    
52.8    
53.0    
53.3    
53.5    
53.8    
54.0    
54.2    
54.5    
54.7    
55.0    
55.2    
55.4    
55.7    
55.9    
56.2    
56.4    
56.7    
56.9    
57.1    
57.4    
57.6    
57.9    
58.1    
58.4    
58.6    
58.8    
59.1    
59.3    
59.6    
59.8    
60.0    
60.3    
60.5    
60.8    
61.0    
61.3    
61.5    
61.7    
62.0    
62.2    
62.5    
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63.0    
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63.4    
63.7    
63.9    
64.2    
64.4    
64.6    
64.9    
65.1    
65.4    
65.6    
65.9    
66.1    
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66.6    
66.8    
67.1    
67.3    
67.6    
67.8    
68.0    
68.3    
68.5    
68.8    
69.0    
69.2    
69.5    
69.7    
70.0    
70.2    
70.5    
70.7    
70.9    
71.2    
71.4    
71.7    
71.9    
72.2    
72.4    
72.6    
72.9    
73.1    
73.4    
73.6    
73.8    
74.1    
74.3    
74.6    
74.8    
75.1    
75.3    
75.5    
75.8    
76.0    
76.3    
76.5    
76.8    
77.0    
77.2    
77.5    
77.7    
78.0    
78.2    
78.5    
78.7    
78.9    
79.2    
79.4    
79.7    
79.9    
80.1    
80.4    
80.6    
80.9    
81.1    
81.4    
81.6    
81.8    
82.1    
82.3    
82.6    
82.8    
83.1    
83.3    
83.5    
83.8    
84.0    
84.3    
84.5    
84.7    
85.0    
85.2    
85.5    
85.7    
86.0    
86.2    
86.4    
86.7    
86.9    
87.2    
87.4    
87.7    
87.9    
88.1    
88.4    
88.6    
88.9    
89.1    
89.3    
89.6    
89.8    
90.1    
90.3    
90.6    
90.8    
91.0    
91.3    
91.5    
91.8    
92.0    
92.3    
92.5    
92.7    
93.0    
93.2    
93.5    
93.7    
93.9    
94.2    
94.4    
94.7    
94.9    
95.2    
95.4    
95.6    
95.9    
96.1    
96.4    
96.6    
96.9    
97.1    
97.3    
97.6    
97.8    
98.1    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 33447, rend_intergenic: 11303  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37278, rend_intergenic: 36192  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78789, rend_intergenic: 37333  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83592, rend_intergenic: 80526  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109884, rend_intergenic: 85651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139425, rend_intergenic: 109884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145206, rend_intergenic: 139945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157893, rend_intergenic: 145527  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160743, rend_intergenic: 158818  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167276, rend_intergenic: 161909  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 220565, rend_intergenic: 203413  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 220692, rend_intergenic: 220627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 232567, rend_intergenic: 220700  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 222014 - 233673
-exon list size: 10


building trellis

8.3    
16.7    
25.0    
33.3    
41.7    
50.0    
58.3    
66.7    
75.0    
83.3    
91.7    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 222014 - 232465
-exon list size: 8


building trellis

10.0    
20.0    
30.0    
40.0    
50.0    
60.0    
70.0    
80.0    
90.0    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support